introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

9 rows where transcript_id = 32765348

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
183238042 GT-AG 0 3.336901399577218e-05 78 rna-XM_004954103.2 32765348 2 39995691 39995768 Setaria italica 4555 GGT|GTAAGTAGTG...CTATCTATAACT/TAATTACTAAAC...TGCAG|AAT 0 1 62.621
183238043 GT-AG 0 0.0002025356348156 129 rna-XM_004954103.2 32765348 3 39995880 39996008 Setaria italica 4555 CAG|GTGTGTTTGC...TTTACCTTATAT/TATAATTTTACC...TGCAG|ACT 0 1 65.182
183238044 GT-AG 0 0.0279533459785018 209 rna-XM_004954103.2 32765348 4 39996162 39996370 Setaria italica 4555 TTG|GTATGTTTAA...TGAGCTTTATCT/CTTTATCTGATT...TGCAG|ATT 0 1 68.713
183238045 GT-AG 0 0.0001709336207049 77 rna-XM_004954103.2 32765348 5 39996535 39996611 Setaria italica 4555 CAG|GTATTGTTGT...GTTCATTTATTT/AGTTTGTTCATT...TGCAG|GAC 2 1 72.497
183238046 GT-AG 0 2.1652299067884883e-05 109 rna-XM_004954103.2 32765348 6 39996760 39996868 Setaria italica 4555 AAG|GTTTAATCCC...TGTCTCCTGACT/TGTCTCCTGACT...ATCAG|ATT 0 1 75.911
183238047 GT-AG 0 1.000000099473604e-05 106 rna-XM_004954103.2 32765348 7 39996992 39997097 Setaria italica 4555 AAG|GTAAAACTGC...TGTGTTTTGACG/ACTATTTTTATG...TGTAG|ATT 0 1 78.749
183238048 GT-AG 0 1.000000099473604e-05 106 rna-XM_004954103.2 32765348 8 39997186 39997291 Setaria italica 4555 TTG|GTAATGTCCA...AGTGATTTAATT/AGTGATTTAATT...TCTAG|GGG 1 1 80.78
183249981 GT-AG 0 1.3838955376130358e-05 731 rna-XM_004954103.2 32765348 1 39992440 39993170 Setaria italica 4555 CAG|GTGTTGTACC...GTGTTCTTATCT/TGTGTTCTTATC...AACAG|GAA   0 7.245
183249982 GT-AG 0 1.000000099473604e-05 79 rna-XM_004954103.2 32765348 9 39997669 39997747 Setaria italica 4555 AAT|GTGAGTCAGC...TTTCCCTTTCCT/TAGAAACTGACA...TTCAG|GAA   0 89.479

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);